Predicted mutation
evidence	seq id	position	mutation	annotation	gene	description
RA	NC_000913	4,520,574	(T)5→4	intergenic (‑250/+97)	yjhU ← / ← yjhF	KpLE2 phage‑like element; putative DNA‑binding transcriptional regulator YjhU/KpLE2 phage‑like element; putative transporter YjhF

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	NC_000913	4,520,570	0	T	.	100.0%	112.3 / NA	27	intergenic (‑246/+101)	yjhU/yjhF	KpLE2 phage‑like element; putative DNA‑binding transcriptional regulator YjhU/KpLE2 phage‑like element; putative transporter YjhF
Reads supporting (aligned to +/- strand):  ref base T (0/0);  new base . (13/14);  total (13/14)

AAAGCCGGAGACATGCTCCGGCTTTACAGTATTACTGAGAATACACCCATCAAGCATAATCGAAGGTTCAATATCGCCCCTTTTTGATCGCCAGCGATTCGTCACCGTGCAGACGGTTGCCGTCACTCACTAAATTATGGGGGACAGTGAACAACAG  >  NC_000913/4520490‑4520646                                                                                 |                                                                             aaaGCCGGAGACATGCTCCGGCTTTACAGTATTACTGAGAATACACCCATCAAGCATAATCGAAGGTTCAATATCGCCCCt                                                                              >  2:866511/1‑81 (MQ=255)       ggAGACATGCTCCGGCTTTACAGTATTACTGAGAATACACCCATCAAGCATAATCGAAGGTTCAATATCGCCCCttttgat                                                                        >  2:866520/1‑78 (MQ=255)             aTGCTCCGGCTTTACAGTATTACTGAGAATACACCCATCAAGCATAATCGAAGGTTCAATATCGCCCC‑TTTTGATCGCCAg                                                                 <  2:866466/81‑1 (MQ=255)             aTGCTCCGGCTTTACAGTATTACTGAGAATACACCCATCAAGCATAATCGAAGGTTCAATATCGCCCC‑TTTTGATCGCCAg                                                                 <  2:866467/81‑1 (MQ=255)              tGCTCCGGCTTTACAGTATTACTGAGAATACACCCATCAAGCATAATCGAAGGTTCAATATCGCCCC‑TTTTGATCGCCAGc                                                                >  2:866501/1‑81 (MQ=255)                cTCCGGCTTTACAGTATTTCTGAGAATACACCCATCAAGCATAATCGAAGGTTCAATATCGCCCC‑TTTTGATCGCCAGCg                                                               <  2:866468/80‑1 (MQ=255)                    ggCTTTACAGTATTACTGAGAATACACCCATCAAGCATAATCGAAGGTTCAATATCGCCCC‑TTTTGATCGCCAGCGATTCg                                                          >  1:866500/1‑81 (MQ=255)                        ttACAGTATTACTGAGAATACACCCATCAAGCATAATCGAAGGTTCAATATCGCCCC‑TTTTGATCGCCAGCGATTCGTCAc                                                      >  2:866504/1‑81 (MQ=255)                          aCAGTATTACTGAGAATACACCCATCAAGCATAATCGAAGGTTCAATATCGCCCC‑TTTTGATCGCCAGCGATTCGTCAcc                                                     <  2:866470/80‑1 (MQ=255)                          aCAGTATTACTGAGAATACACCCATCAAGCATAATCGAAGGTTCAATATCGCCCC‑TTTTGATCGCCAGCGATTCGTCAcc                                                     <  2:866469/80‑1 (MQ=255)                                ttACTGAGAATACACCCATCAAGCATAATCGAAGGTTCAATATCGCCCC‑TTTTGATCGCCAGCGATTCGTCACCGTGCAg                                               <  2:866471/80‑1 (MQ=255)                                  aCTGAGAATACACCCATCAAGCATAATCGAAGGTTCAATATCGCCCC‑TTTTGATCGCCAGCGATTCGTCACCGTGCAGACg                                            >  2:866515/1‑81 (MQ=255)                                      agaATACACCCATCAAGCATAATCGAAGGTTCAATATCGCCCC‑TTTTGATCGCCAGCGATTCGTCACCGTGCAGACGGtt                                         <  2:866472/80‑1 (MQ=255)                                        aaTACACCCATCAAGCATAATCGAAGGTTCAATATCGCCCC‑TTTTGATCGCCAGCGATTCGTCACCGTGCAGACGGTTGcc                                      >  2:866506/1‑81 (MQ=255)                                         aTACACCCATCAAGCATAATCGAAGGTTCAATATCGCCCC‑TTTTGATCGCCAGCGATTCGTCACCGTGCAGACGGTTGCCg                                     <  2:866473/81‑1 (MQ=255)                                                 aTCAAGCATAATCGAAGGTTCAATATCGCCCC‑TTTTGATCGCCAGCGATTCGTCACCGTGCAGACGGTTGCCGtcactcac                             >  1:866519/1‑81 (MQ=255)                                                 aTCAAGCATAATCGAAGGTTCAATATCGCCCC‑TTTTGATCGCCAGCGATTCGTCACCGTGCAGACGGTTGCCGtcactcac                             >  2:866505/1‑81 (MQ=255)                                                  tCAAGCATAATCGAAGGTTCAATATCGCCCC‑TTTTGATCGCCAGCGATTCGTCACCGTGCAGACGGTTGCCGTcactcact                            <  1:866475/81‑1 (MQ=255)                                                    aaGCATAATCGAAGGTTCAATATCGCCCC‑TTTTGATCGCCAGCGATTCGTCACCGTGCAGACGGTTGCCGTCACTCACTaa                          <  1:866477/81‑1 (MQ=255)                                                    aaGCATAATCGAAGGTTCAATATCGCCCC‑TTTTGATCGCCAGCGATTCGTCACCGTGCAGACGGTTGCCGTCACTCACTa                           <  1:866476/80‑1 (MQ=255)                                                       cATAATCGAAGGTTCAATATCGCCCC‑TTTTGATCGCCAGCGATTCGTCACCGTGCAGACGGTTGCCGTCACTCACTAAAt                        >  1:866510/1‑80 (MQ=255)                                                          aaTCGAAGGTTCAATATCGCCCC‑TTTTGATCGCCAGCGATTCGTCACCGTGCAGACGGTTGCCGTCACTCACTAAATTATg                    >  2:866525/1‑81 (MQ=255)                                                           aTCGAAGGTTCAATATCGCCCC‑TTTTGATCGCCAGCGATTCGTCACCGTGCAGACGGTTGCCGTCACTCACTAAATTATgg                   >  2:866522/1‑81 (MQ=255)                                                             cGAAGGTTCAATATCGCCCC‑TTTTGATCGCCAGCGATTCGTCACCGTGCAGACGGTTGCCGTCACTCACTAAATTATgggg                 >  1:866518/1‑81 (MQ=255)                                                              gAAGGTTCAATATCGCCCC‑TTTTGATCGCCAGCGATTCGTCACCGTGCAGACGGTTGCCGTCACTCACTAAATTATgggg                 >  1:866515/1‑80 (MQ=255)                                                              gAAGGTTCAATATCGCCCC‑TTTTGATCGCCAGCGATTCGTCACCGTGCAGACGGTTGCCGTCACTCACTAAATTATgggg                 >  2:866516/1‑80 (MQ=255)                                                                aGGTTCAATATCGCCCC‑TTTTGATCGCCAGCGATTCGTCACCGTGCAGACGGTTGCCGTCACTCACTAAATTATGGGGGAc              <  1:866478/81‑1 (MQ=255)                                                                        tatCGCCCC‑TTTTGATCGCCAGCGATTCGTCGCCGTGCAGACGGTTGCCGTCACTCACTAAATTATGGGGGACAGTGaaca      <  2:866478/81‑1 (MQ=255)                                                                          tCGCCCC‑TTTTGATCGCCAGCGATTCGTCACCGTGCAGACGGTTGCCGTCACTCACTAAATTATGGGGGACAGTGaacaac    <  2:866479/81‑1 (MQ=255)                                                                             gccccTTTTGATCGCCAGCGATTCGTCACCGTGCAGACGGTTGCCGTCACTCACTAAATTATGGGGGACAGTGAACAACAg  >  1:866528/2‑81 (MQ=255)                                                                             gccccTTTTGATCGCCAGCGATTCGTCACCGTGCAGACGGTTGCCGTCACTCACTAAATTATGGGGGACAGTGAACAACAg  >  1:866514/2‑81 (MQ=255)                                                                             gccccTTTTGATCGCCAGCGATTCGTCACCGTGCAGACGGTTGCCGTCACTCACTAAATTATGGGGGACAGTGAACAACAg  <  1:866481/80‑1 (MQ=255)                                                                                 |                                                                             AAAGCCGGAGACATGCTCCGGCTTTACAGTATTACTGAGAATACACCCATCAAGCATAATCGAAGGTTCAATATCGCCCCTTTTTGATCGCCAGCGATTCGTCACCGTGCAGACGGTTGCCGTCACTCACTAAATTATGGGGGACAGTGAACAACAG  >  NC_000913/4520490‑4520646

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 34 ≤ ATCG/ATCG < 35 ≤ ATCG/ATCG < 38 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑